Many organisms have evolved DNA damage response mechanisms to deal with the constant damage to DNA caused by endogenous and exogenous agents. These mechanisms activate cell cycle checkpoints to allow time for DNA repair ...

The reconstruction of regulatory networks is one of the most challenging tasks in systems biology. Although some models for inferring regulatory networks can make useful predictions about the wiring and mechanisms of ...

Understanding the effectiveness of a drug therapy on halting disease progression is an essential aspect of cancer biology. Conventional assays that study cell behavior after a drug intervention report the average response ...

The vast majority of the mammalian genome does not encode proteins. Only 2% of the genome is exonic, yet recent deep survey of human transcripitome suggested that 75% of the genome is transcribed, including half of the ...

With the emergence of the 2009 A(H1N1) pandemic influenza virus and the rapid spread of drug resistance in recent years, the need to develop new anti-influenza drugs that can reduce the emergence of new resistant viruses ...

Microbes play a central role in diverse processes ranging from global elemental cycles to human digestion. Understanding these complex processes requires a rm under- standing of the interplay between microbes and their ...

An ability to control the degree of heterogeneity in cellular phenotypes may be important for cell populations to survive uncertain and ever-changing environments or make cell-fate decisions in response to external stimuli. ...

In the post-genomic era, greater emphasis has been placed on understanding the function of genes at the systems level. To meet these needs, biologists are creating larger, and increasingly complex datasets. In recent years, ...

Present day microbial genomes are the handiwork of over 3 billion years of evolution. Comparisons between these genomes enable stepping backwards through past evolutionary events, and can be formalized using binary tree ...

Diversity within a population of organisms is typically ascribed to genetic differences. However, even members of a genetically identical group of cells or organisms in identical environments can exhibit variability in ...

All cells sense and respond to their environments using signal transduction pathways. These pathways control a sweeping variety of cellular processes across the domains of life, but the pathways are often built from a ...

Excessive collagen degradation (collagenolysis) has been implicated in a series of diseases such as tumor metastasis, atherosclerosis and arthritis. There are still several unresolved questions about the mechanism of ...

I present three novel computational methods to address the challenge of identifying protein-DNA interactions at high spatial resolution from noisy ChIP-Seq data. I first present the genome positioning system (GPS) algorithm ...

Posttranscriptional regulation of mRNA by RNA-binding proteins plays key roles in regulating the transcriptome over the course of development, between tissues and in disease states. The specific interactions between mRNA ...